seqTracks.h File Reference

#include <string>
#include <vector>
#include <fstream>
#include <map>
#include <queue>
#include "text.h"
#include "traceback_path.h"
#include "hmm.h"
#include "sequences.h"
#include <stdlib.h>

Go to the source code of this file.

Classes
struct	StochHMM::ppTrack
class	StochHMM::seqTracks
class	StochHMM::seqJob

Namespaces
namespace	StochHMM
	traceback_path.h

Enumerations
enum	StochHMM::SeqFileFormat { StochHMM::FASTA, StochHMM::FASTQ }
	Currently only FASTA and FASTQ formats are supported. More...
enum	StochHMM::SeqFilesType { StochHMM::SINGLE_TRACK, StochHMM::MULTI_TRACK }

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Detailed Description

Contains functions to import FASTA/FASTQ sequences from files and select the applicable model to deal with that sequence. It was set up to generate a seqJob for each sequence, then select a model, and then allow the programmer to thread the decoding algorithm.

Definition in file seqTracks.h.